miRNA: 3'- gccAAAAAUGc------GCGCGGUGuUGUGGA- -5'
miRNA: 3'- gCCAaa-AAUGCGCGCGG------------UGUUGUGGa -5'
miRNA: 3'- gCCAaAAAUGCGCGCGGUGUuGUGga -5'
miRNA: 3'- gCCAaaaa--UGCGCGC------GGUGUUGUGGA- -5'
miRNA: 3'- -GCCAAAAAUGCGCGCGGUGUUGUGGA- -5'
Results 1 - 5 of 5 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# |
P value
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| Predicted miRNA align pattern | |||||||
| 20958 | 5' | -50.9 | NC_004724.1 | + | 16054 | 0.66 | 0.571343 |
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Target: 5'- --aUUUUUACagccuccCGCGCCGCcACACCUg -3' miRNA: 3'- gccAAAAAUGc------GCGCGGUGuUGUGGA- -5' |
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| 20958 | 5' | -50.9 | NC_004724.1 | + | 3298 | 0.7 | 0.350408 |
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Target: 5'- aGGUaagUUAUGCGCGCCuucuucuuaaucAUAGCACUg -3' miRNA: 3'- gCCAaa-AAUGCGCGCGG------------UGUUGUGGa -5' |
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| 20958 | 5' | -50.9 | NC_004724.1 | + | 15302 | 0.73 | 0.242882 |
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Target: 5'- gGGUaUUUACGCGUGUCGCAuCGCg- -3' miRNA: 3'- gCCAaAAAUGCGCGCGGUGUuGUGga -5' |
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| 20958 | 5' | -50.9 | NC_004724.1 | + | 736 | 0.78 | 0.109287 |
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Target: 5'- aGGUguugugGCGCGCGuaaaaaCCGCAGCACCUg -3' miRNA: 3'- gCCAaaaa--UGCGCGC------GGUGUUGUGGA- -5' |
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| 20958 | 5' | -50.9 | NC_004724.1 | + | 777 | 1.09 | 0.00056 |
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Target: 5'- gCGGUUUUUACGCGCGCCACAACACCUa -3' miRNA: 3'- -GCCAAAAAUGCGCGCGGUGUUGUGGA- -5' |
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Note:
When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.
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